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Data released on May 20, 2014

Genomic data of the American Flamingo (Phoenicopterus ruber ruber).

Gilbert, M, P; Jarvis, E, D; Li, B; Li, C; The Avian Genome Consortium, ; Wang, J; Zhang, G (2014): Genomic data of the American Flamingo (Phoenicopterus ruber ruber). GigaScience Database. http://dx.doi.org/10.5524/101035 RIS BibTeX Text

The Caribbean Flamingo (Phoenicopterus ruber ruber (Linnaeus, 1758)) is a sub-species of, and commonly referred to as the American Flamingo (Phoenicopterus ruber). The Caribbean Flamingo is found generally throughout the Caribbean and is a non-migratory bird (those that do migrate only move between summer and winter breeding grounds). It is a largely social bird that breeds in huge colonies, and is a homeothermic endotherm - an animal that keeps a consistent temperature that is regulated within its body.
These data have been produced as part of the Avian Phylogenomics Project. DNA was collected from a male (leg band GWX) who had lived at the Copenhagen Zoo in Denmark, and was tended to by Mads Bertelsen. We sequenced the 1.24Gb genome to a depth of approximately 33X.
The assembled scaffolds of high quality sequences total 1.14Gb, with the contig and scaffold N50 values of 16kb and 37kb respectively. We identified 14,024 protein-coding genes with a mean length of 11.7kb.

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Related manuscripts:

doi:10.1186/2047-217X-3-26
doi:10.1126/science.1251385
doi:10.1126/science.1253451

Related datasets:

doi:10.5524/101035 IsSupplementTo doi:10.5524/101000

Accessions (data included in GigaDB):

BioProject: PRJNA212904
SRA: SRP029345

Projects:



Genomic

http://gigadb.org/images/data/cropped/bird/phoenicopterus_ruber.png

Samples: Table Settings

Columns:

Common Name
Scienfic Name
Sample Attributes
Taxonomic ID
Genbank Name

Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
Caribbean flamingo - TG99218American FlamingoPhoenicopterus ruber ruber Source material identifiers:Tom Gilbert
Estimated genome size:1.24
Funding source:BGI
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Displaying 1-1 of 1 Sample(s).

Files: (FTP site) Table Settings

Columns:

File Description
Sample ID
File Type
File Format
Size
Release Date
Download Link
File Attributes

File NameSample IDFile TypeFile FormatSizeRelease Date 
Caribbean flamingo - TG9Coding sequenceFASTA5.06 MB2014-02-07
Caribbean flamingo - TG9Sequence assemblyFASTA340.91 MB2014-02-07
Caribbean flamingo - TG9AnnotationGFF1.25 MB2014-02-07
Caribbean flamingo - TG9Protein sequenceFASTA3.29 MB2014-02-07
Caribbean flamingo - TG9Repeat sequenceUNKNOWN6.36 MB2014-02-07
Displaying 1-5 of 5 File(s).

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